HHsearch alignment for GI: 254780601 and conserved domain: pfam03880
>pfam03880 DbpA DbpA RNA binding domain. This RNA binding domain is found at the C-terminus of a number of DEAD helicase proteins. It is sufficient to confer specificity for hairpin 92 of 23S rRNA, which is part of the ribosomal A-site. However, several members of this family lack specificity for 23S rRNA. These can proteins can generally be distinguished by a basic region that extends beyond this domain [Karl Kossen, unpublished data].
Probab=99.49 E-value=8.6e-14 Score=111.95 Aligned_cols=62 Identities=24% Similarity=0.386 Sum_probs=59.2
Q ss_pred EEEEEECHHHCCCCHHHHHHHHHHCCCCCHHHEEEEEECCCCCEEEECHHHHHHHHHHHHCC
Q ss_conf 49999670227986889999775002899888300364188506761899999999985148
Q gi|254780601|r 467 SWFSLSVGSKQKAEARWLMPMLCRSSGINRQSIGAIRVQPDLTFVEVSADGVDLLRRTVKLD 528 (573)
Q Consensus 467 ~r~~InvGr~d~v~p~~ivgai~~~~~i~~~~IG~I~i~~~~S~vei~~~~~~~~~~~~~~~ 528 (573)
T Consensus 1 ~rl~in~G~~d~~~~~~lv~~l~~~~~i~~~~IG~I~I~~~~Sfv~v~~~~a~~vl~~l~~~ 62 (74)
T pfam03880 1 VRLFINVGRKDGIRPGDIVGAIANEGGITGDDIGKIDIFDNFSFVEVPEDMADKVLKALKKG 62 (74)
T ss_pred CEEEEECCCCCCCCHHHHHHHHHHCCCCCHHHEEEEEEECCEEEEEECHHHHHHHHHHHCCC
T ss_conf 99999765313997899999997522999767606999656589996756199999983789